RL40_BOVIN
ID RL40_BOVIN Reviewed; 128 AA.
AC P63048; O97577; P02248; P02249; P02250; P62990; P80169; Q01235; Q24K23;
AC Q28169; Q28170; Q29120; Q3T0V5; Q3ZCE3; Q862C1; Q862F4; Q862M4; Q862T5;
AC Q862X8; Q91887; Q91888;
DT 31-AUG-2004, integrated into UniProtKB/Swiss-Prot.
DT 10-AUG-2010, sequence version 2.
DT 03-AUG-2022, entry version 125.
DE RecName: Full=Ubiquitin-60S ribosomal protein L40;
DE AltName: Full=Ubiquitin A-52 residue ribosomal protein fusion product 1;
DE Contains:
DE RecName: Full=Ubiquitin;
DE Contains:
DE RecName: Full=60S ribosomal protein L40;
DE AltName: Full=CEP52;
DE Flags: Precursor;
GN Name=UBA52; Synonyms=UBCEP2;
OS Bos taurus (Bovine).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Laurasiatheria; Artiodactyla; Ruminantia; Pecora; Bovidae;
OC Bovinae; Bos.
OX NCBI_TaxID=9913;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA].
RX PubMed=12658628; DOI=10.1002/mrd.10292;
RA Ishiwata H., Katsuma S., Kizaki K., Patel O.V., Nakano H., Takahashi T.,
RA Imai K., Hirasawa A., Shiojima S., Ikawa H., Suzuki Y., Tsujimoto G.,
RA Izaike Y., Todoroki J., Hashizume K.;
RT "Characterization of gene expression profiles in early bovine pregnancy
RT using a custom cDNA microarray.";
RL Mol. Reprod. Dev. 65:9-18(2003).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=Crossbred X Angus; TISSUE=Ileum, and Liver;
RG NIH - Mammalian Gene Collection (MGC) project;
RL Submitted (AUG-2005) to the EMBL/GenBank/DDBJ databases.
RN [3]
RP PROTEIN SEQUENCE OF 1-74.
RX PubMed=1170880; DOI=10.1021/bi00681a026;
RA Schlesinger D.H., Goldstein G., Niall H.D.;
RT "The complete amino acid sequence of ubiquitin, an adenylate cyclase
RT stimulating polypeptide probably universal in living cells.";
RL Biochemistry 14:2214-2218(1975).
RN [4]
RP PROTEIN SEQUENCE OF 1-50.
RX PubMed=6254502; DOI=10.1016/0006-291x(80)91188-2;
RA Hamilton J.W., Rouse J.B.;
RT "The biosynthesis of ubiquitin by parathyroid gland.";
RL Biochem. Biophys. Res. Commun. 96:114-120(1980).
RN [5]
RP PROTEIN SEQUENCE OF 1-20.
RC TISSUE=Brain;
RX PubMed=1333954; DOI=10.1111/j.1432-1033.1992.tb17446.x;
RA Zdebska E., Antoniewicz J., Nilsson B., Sandhoff K., Fuerst W., Janik P.,
RA Koscielak J.;
RT "Ganglioside binding proteins of calf brain with ubiquitin-like N-
RT terminals.";
RL Eur. J. Biochem. 210:483-489(1992).
CC -!- FUNCTION: [Ubiquitin]: Exists either covalently attached to another
CC protein, or free (unanchored). When covalently bound, it is conjugated
CC to target proteins via an isopeptide bond either as a monomer
CC (monoubiquitin), a polymer linked via different Lys residues of the
CC ubiquitin (polyubiquitin chains) or a linear polymer linked via the
CC initiator Met of the ubiquitin (linear polyubiquitin chains).
CC Polyubiquitin chains, when attached to a target protein, have different
CC functions depending on the Lys residue of the ubiquitin that is linked:
CC Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved
CC in ERAD (endoplasmic reticulum-associated degradation) and in cell-
CC cycle regulation; Lys-29-linked is involved in proteotoxic stress
CC response and cell cycle; Lys-33-linked is involved in kinase
CC modification; Lys-48-linked is involved in protein degradation via the
CC proteasome; Lys-63-linked is involved in endocytosis, DNA-damage
CC responses as well as in signaling processes leading to activation of
CC the transcription factor NF-kappa-B. Linear polymer chains formed via
CC attachment by the initiator Met lead to cell signaling. Ubiquitin is
CC usually conjugated to Lys residues of target proteins, however, in rare
CC cases, conjugation to Cys or Ser residues has been observed. When
CC polyubiquitin is free (unanchored-polyubiquitin), it also has distinct
CC roles, such as in activation of protein kinases, and in signaling.
CC {ECO:0000250|UniProtKB:P62987}.
CC -!- FUNCTION: [60S ribosomal protein L40]: Component of the 60S subunit of
CC the ribosome. Ribosomal protein L40 is essential for translation of a
CC subset of cellular transcripts, and especially for cap-dependent
CC translation of vesicular stomatitis virus mRNAs.
CC {ECO:0000250|UniProtKB:P62987}.
CC -!- SUBUNIT: Ribosomal protein L40 is part of the 60S ribosomal subunit.
CC Interacts with UBQLN1 (via UBA domain). {ECO:0000250|UniProtKB:P62987}.
CC -!- SUBCELLULAR LOCATION: [Ubiquitin]: Cytoplasm {ECO:0000250}. Nucleus
CC {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: [60S ribosomal protein L40]: Cytoplasm
CC {ECO:0000250}.
CC -!- PTM: [Ubiquitin]: Phosphorylated at Ser-65 by PINK1 during mitophagy.
CC Phosphorylated ubiquitin specifically binds and activates parkin
CC (PRKN), triggering mitophagy. Phosphorylation does not affect E1-
CC mediated E2 charging of ubiquitin but affects discharging of E2 enzymes
CC to form polyubiquitin chains. It also affects deubiquitination by
CC deubiquitinase enzymes such as USP30. {ECO:0000250|UniProtKB:P62987}.
CC -!- PTM: [Ubiquitin]: Mono-ADP-ribosylated at the C-terminus by PARP9, a
CC component of the PPAR9-DTX3L complex. ADP-ribosylation requires
CC processing by E1 and E2 enzymes and prevents ubiquitin conjugation to
CC substrates such as histones. {ECO:0000250|UniProtKB:P62987}.
CC -!- MISCELLANEOUS: Ubiquitin is encoded by 4 different genes. Uba52 and
CC Rps27a genes code for a single copy of ubiquitin fused to the ribosomal
CC proteins L40 and S27a, respectively. UBB and UBC genes code for a
CC polyubiquitin precursor with exact head to tail repeats, the number of
CC repeats differ between species and strains.
CC -!- SIMILARITY: In the N-terminal section; belongs to the ubiquitin family.
CC {ECO:0000305}.
CC -!- SIMILARITY: In the C-terminal section; belongs to the eukaryotic
CC ribosomal protein eL40 family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAC56447.1; Type=Frameshift; Evidence={ECO:0000305};
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DR EMBL; AB098957; BAC56447.1; ALT_FRAME; mRNA.
DR EMBL; BC102248; AAI02249.1; -; mRNA.
DR RefSeq; NP_001069831.1; NM_001076363.2.
DR PDB; 4LJO; X-ray; 1.56 A; B=1-76.
DR PDB; 4LJP; X-ray; 2.15 A; B=1-76.
DR PDB; 4S22; X-ray; 2.30 A; A/B/C/D=1-76.
DR PDB; 6ZVK; EM; 3.49 A; E2=77-128.
DR PDB; 7A01; EM; 3.60 A; E2=77-128.
DR PDB; 7NFX; EM; 3.20 A; m=77-128.
DR PDB; 7OBR; EM; 2.80 A; m=77-128.
DR PDBsum; 4LJO; -.
DR PDBsum; 4LJP; -.
DR PDBsum; 4S22; -.
DR PDBsum; 6ZVK; -.
DR PDBsum; 7A01; -.
DR PDBsum; 7NFX; -.
DR PDBsum; 7OBR; -.
DR AlphaFoldDB; P63048; -.
DR SASBDB; P63048; -.
DR SMR; P63048; -.
DR STRING; 9913.ENSBTAP00000010176; -.
DR PaxDb; P63048; -.
DR PRIDE; P63048; -.
DR Ensembl; ENSBTAT00000010176; ENSBTAP00000010176; ENSBTAG00000007737.
DR GeneID; 615199; -.
DR KEGG; bta:615199; -.
DR CTD; 7311; -.
DR VEuPathDB; HostDB:ENSBTAG00000007737; -.
DR VGNC; VGNC:49988; UBA52.
DR eggNOG; KOG0003; Eukaryota.
DR GeneTree; ENSGT00940000153593; -.
DR HOGENOM; CLU_010412_3_4_1; -.
DR InParanoid; P63048; -.
DR OMA; AREYNQN; -.
DR OrthoDB; 1536766at2759; -.
DR TreeFam; TF352129; -.
DR Reactome; R-BTA-110312; Translesion synthesis by REV1.
DR Reactome; R-BTA-110320; Translesion Synthesis by POLH.
DR Reactome; R-BTA-1234176; Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha.
DR Reactome; R-BTA-1253288; Downregulation of ERBB4 signaling.
DR Reactome; R-BTA-1295596; Spry regulation of FGF signaling.
DR Reactome; R-BTA-1358803; Downregulation of ERBB2:ERBB3 signaling.
DR Reactome; R-BTA-156827; L13a-mediated translational silencing of Ceruloplasmin expression.
DR Reactome; R-BTA-174113; SCF-beta-TrCP mediated degradation of Emi1.
DR Reactome; R-BTA-1799339; SRP-dependent cotranslational protein targeting to membrane.
DR Reactome; R-BTA-182971; EGFR downregulation.
DR Reactome; R-BTA-187577; SCF(Skp2)-mediated degradation of p27/p21.
DR Reactome; R-BTA-195253; Degradation of beta-catenin by the destruction complex.
DR Reactome; R-BTA-201681; TCF dependent signaling in response to WNT.
DR Reactome; R-BTA-205043; NRIF signals cell death from the nucleus.
DR Reactome; R-BTA-209560; NF-kB is activated and signals survival.
DR Reactome; R-BTA-2173795; Downregulation of SMAD2/3:SMAD4 transcriptional activity.
DR Reactome; R-BTA-2565942; Regulation of PLK1 Activity at G2/M Transition.
DR Reactome; R-BTA-3134975; Regulation of innate immune responses to cytosolic DNA.
DR Reactome; R-BTA-3769402; Deactivation of the beta-catenin transactivating complex.
DR Reactome; R-BTA-450302; activated TAK1 mediates p38 MAPK activation.
DR Reactome; R-BTA-4608870; Asymmetric localization of PCP proteins.
DR Reactome; R-BTA-4641257; Degradation of AXIN.
DR Reactome; R-BTA-4641263; Regulation of FZD by ubiquitination.
DR Reactome; R-BTA-5357905; Regulation of TNFR1 signaling.
DR Reactome; R-BTA-5357956; TNFR1-induced NFkappaB signaling pathway.
DR Reactome; R-BTA-5610780; Degradation of GLI1 by the proteasome.
DR Reactome; R-BTA-5632684; Hedgehog 'on' state.
DR Reactome; R-BTA-5654726; Negative regulation of FGFR1 signaling.
DR Reactome; R-BTA-5654727; Negative regulation of FGFR2 signaling.
DR Reactome; R-BTA-5654732; Negative regulation of FGFR3 signaling.
DR Reactome; R-BTA-5654733; Negative regulation of FGFR4 signaling.
DR Reactome; R-BTA-5656169; Termination of translesion DNA synthesis.
DR Reactome; R-BTA-5668541; TNFR2 non-canonical NF-kB pathway.
DR Reactome; R-BTA-5675221; Negative regulation of MAPK pathway.
DR Reactome; R-BTA-5675482; Regulation of necroptotic cell death.
DR Reactome; R-BTA-5689877; Josephin domain DUBs.
DR Reactome; R-BTA-5689880; Ub-specific processing proteases.
DR Reactome; R-BTA-5689896; Ovarian tumor domain proteases.
DR Reactome; R-BTA-5689901; Metalloprotease DUBs.
DR Reactome; R-BTA-5693565; Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks.
DR Reactome; R-BTA-5696394; DNA Damage Recognition in GG-NER.
DR Reactome; R-BTA-5696395; Formation of Incision Complex in GG-NER.
DR Reactome; R-BTA-6783310; Fanconi Anemia Pathway.
DR Reactome; R-BTA-6804757; Regulation of TP53 Degradation.
DR Reactome; R-BTA-69231; Cyclin D associated events in G1.
DR Reactome; R-BTA-72689; Formation of a pool of free 40S subunits.
DR Reactome; R-BTA-8849469; PTK6 Regulates RTKs and Their Effectors AKT1 and DOK1.
DR Reactome; R-BTA-8854050; FBXL7 down-regulates AURKA during mitotic entry and in early mitosis.
DR Reactome; R-BTA-8866427; VLDLR internalisation and degradation.
DR Reactome; R-BTA-8866652; Synthesis of active ubiquitin: roles of E1 and E2 enzymes.
DR Reactome; R-BTA-8866654; E3 ubiquitin ligases ubiquitinate target proteins.
DR Reactome; R-BTA-8939902; Regulation of RUNX2 expression and activity.
DR Reactome; R-BTA-8941858; Regulation of RUNX3 expression and activity.
DR Reactome; R-BTA-8951664; Neddylation.
DR Reactome; R-BTA-901032; ER Quality Control Compartment (ERQC).
DR Reactome; R-BTA-912631; Regulation of signaling by CBL.
DR Reactome; R-BTA-9705462; Inactivation of CSF3 (G-CSF) signaling.
DR Reactome; R-BTA-9706369; Negative regulation of FLT3.
DR Reactome; R-BTA-9708530; Regulation of BACH1 activity.
DR Reactome; R-BTA-9755511; KEAP1-NFE2L2 pathway.
DR Reactome; R-BTA-975956; Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
DR Reactome; R-BTA-975957; Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).
DR Reactome; R-BTA-983168; Antigen processing: Ubiquitination & Proteasome degradation.
DR Proteomes; UP000009136; Chromosome 7.
DR Bgee; ENSBTAG00000007737; Expressed in laryngeal cartilage and 107 other tissues.
DR GO; GO:0005737; C:cytoplasm; IBA:GO_Central.
DR GO; GO:0022625; C:cytosolic large ribosomal subunit; IEA:Ensembl.
DR GO; GO:0022627; C:cytosolic small ribosomal subunit; IBA:GO_Central.
DR GO; GO:0005783; C:endoplasmic reticulum; IEA:Ensembl.
DR GO; GO:0005654; C:nucleoplasm; IEA:Ensembl.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0005886; C:plasma membrane; IEA:Ensembl.
DR GO; GO:0045202; C:synapse; IEA:Ensembl.
DR GO; GO:0031386; F:protein tag; IBA:GO_Central.
DR GO; GO:0003735; F:structural constituent of ribosome; IBA:GO_Central.
DR GO; GO:0031625; F:ubiquitin protein ligase binding; IBA:GO_Central.
DR GO; GO:0019941; P:modification-dependent protein catabolic process; IBA:GO_Central.
DR GO; GO:0016567; P:protein ubiquitination; IBA:GO_Central.
DR GO; GO:0006412; P:translation; IEA:InterPro.
DR Gene3D; 4.10.1060.50; -; 1.
DR InterPro; IPR038587; L40e_sf.
DR InterPro; IPR001975; Ribosomal_L40e.
DR InterPro; IPR000626; Ubiquitin-like_dom.
DR InterPro; IPR029071; Ubiquitin-like_domsf.
DR InterPro; IPR019954; Ubiquitin_CS.
DR InterPro; IPR019956; Ubiquitin_dom.
DR Pfam; PF01020; Ribosomal_L40e; 1.
DR Pfam; PF00240; ubiquitin; 1.
DR PRINTS; PR00348; UBIQUITIN.
DR SMART; SM01377; Ribosomal_L40e; 1.
DR SMART; SM00213; UBQ; 1.
DR SUPFAM; SSF54236; SSF54236; 1.
DR PROSITE; PS00299; UBIQUITIN_1; 1.
DR PROSITE; PS50053; UBIQUITIN_2; 1.
PE 1: Evidence at protein level;
KW 3D-structure; ADP-ribosylation; Cytoplasm; Direct protein sequencing;
KW Isopeptide bond; Methylation; Nucleus; Phosphoprotein; Reference proteome;
KW Ribonucleoprotein; Ribosomal protein; Ubl conjugation.
FT CHAIN 1..76
FT /note="Ubiquitin"
FT /id="PRO_0000396432"
FT CHAIN 77..128
FT /note="60S ribosomal protein L40"
FT /id="PRO_0000138748"
FT DOMAIN 1..76
FT /note="Ubiquitin-like"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00214"
FT SITE 54
FT /note="Interacts with activating enzyme"
FT SITE 68
FT /note="Essential for function"
FT SITE 72
FT /note="Interacts with activating enzyme"
FT MOD_RES 65
FT /note="Phosphoserine; by PINK1"
FT /evidence="ECO:0000250|UniProtKB:P62987"
FT MOD_RES 76
FT /note="ADP-ribosylglycine"
FT /evidence="ECO:0000250|UniProtKB:P62987"
FT MOD_RES 98
FT /note="N6,N6,N6-trimethyllysine"
FT /evidence="ECO:0000250|UniProtKB:P62986"
FT CROSSLNK 6
FT /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT G-Cter in ubiquitin)"
FT /evidence="ECO:0000250|UniProtKB:P62987"
FT CROSSLNK 11
FT /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT G-Cter in ubiquitin)"
FT /evidence="ECO:0000250|UniProtKB:P62987"
FT CROSSLNK 27
FT /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT G-Cter in ubiquitin)"
FT /evidence="ECO:0000250|UniProtKB:P62987"
FT CROSSLNK 29
FT /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT G-Cter in ubiquitin)"
FT /evidence="ECO:0000250|UniProtKB:P62987"
FT CROSSLNK 33
FT /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT G-Cter in ubiquitin)"
FT /evidence="ECO:0000250|UniProtKB:P62987"
FT CROSSLNK 48
FT /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT G-Cter in ubiquitin)"
FT /evidence="ECO:0000250|UniProtKB:P62987"
FT CROSSLNK 63
FT /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT G-Cter in ubiquitin)"
FT /evidence="ECO:0000250|UniProtKB:P62987"
FT CROSSLNK 76
FT /note="Glycyl lysine isopeptide (Gly-Lys) (interchain with
FT K-? in acceptor proteins)"
FT STRAND 2..6
FT /evidence="ECO:0007829|PDB:4LJO"
FT STRAND 12..16
FT /evidence="ECO:0007829|PDB:4LJO"
FT HELIX 23..34
FT /evidence="ECO:0007829|PDB:4LJO"
FT HELIX 38..40
FT /evidence="ECO:0007829|PDB:4LJO"
FT STRAND 41..45
FT /evidence="ECO:0007829|PDB:4LJO"
FT HELIX 57..59
FT /evidence="ECO:0007829|PDB:4LJO"
FT STRAND 66..71
FT /evidence="ECO:0007829|PDB:4LJO"
SQ SEQUENCE 128 AA; 14728 MW; 7BCB602ABEFAD02A CRC64;
MQIFVKTLTG KTITLEVEPS DTIENVKAKI QDKEGIPPDQ QRLIFAGKQL EDGRTLSDYN
IQKESTLHLV LRLRGGIIEP SLRQLAQKYN CDKMICRKCY ARLHPRAVNC RKKKCGHTNN
LRPKKKVK
